RiceGAAS: Analyses for Your Genomic Sequences

RiceGAAS: Analyses for Your Genomic Sequences

This page is the entry for web service of RiceGAAS. The system supports computational analyses of your query genomic sequence and graphical result view. In order to use this service, you must register your e-mail address and password. This procedure is necessary to protect your data from the third party.

Please login if you have registered.

Please register if you are a first time user.

Introduction

Input sequence

     DNA sequence in Raw or FASTA sequence format.
     In the sequence, A, T, G, C and N for unknown are acceptable.
     (case insensitive)

     The server can now accept sequences up to 250kbp in length.
     (recommended over 10kbp for meaningful analyses)

Analysis time

     Analysis is usually completed in about 24 hours.

Output view

  Annotation map figure

     GENSCAN(1.0) with arabidopsis matrix
     GENSCAN(1.0) with maize matrix
     RiceHMM(2.0)
     FGENESH(1.1)
     Blastn(NCBI 2.2.10) against maffrice database
     Blastx(NCBI 2.2.10) against nr database
     mzef against arabidopsis matrix
     SplicePredictor with arabidopsis matrix
     SplicePredictor with maize matrix
     Signal Scan against PLACE database
     Blastn(NCBI 2.2.10) against LTRdb
     printrepeats
     RepeatMasker(050599) against Arabidopsis thaliana repeats
     tRNAscan-SE(1.12)

     AutoPredgeneset      automatically predicted genes
     AutoPredLTR          automatically predicted long terminal repeats


  Predicted gene page

     nucleotide sequence of predicted gene
     amino acid sequence of predicted gene

     Blastn(NCBI 2.2.10) against maffrice database
     Blastp(NCBI 2.2.10) against nr database
     HMMER(2.1.1) against Pfam database
     ProfileScan against prosite database
     Psort
     SOSUI
     MOTIF

Nov 4, 2006